Sequence
atgc intronic sequence ATGC exonic sequence...tacttcccttgtgatcccaatgcatcctttcagtttcacctctggaacacggatacatgtgttgatctcctctctcctcccctatgatatctccttgcagCCTTTCCCACTGCTGCTGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTCTCG
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G030877_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os11g05480.1 (Oryza sativa), 3'ss of exon 3
-------tacttcccttgtgatcccaatgcatcctttcagtttcacctctggaacacgg--atacatgtgttgatctcctctctcctcccctatgatatctccttgcagCCTTTCCCACTGCTGCTGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTCTCG-------------
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cagggaccccacaccttgtgatcccaatgcagccttt-----tcacctctggtgtattgccatgcatttcttgatctcctt----ctcccctatgatatcttcttgcagCCTTCTCCACCACTGCT---------------ACTGCTGCGGCTACAGCTAGGCCTCCTCCTACACTGGACATCTTCCCATCCTGGCCTATGAGGTCTCTCCACACACCCAAG
upper sequence: GRMZM2G030877_T01 (Zea mays), 3'ss of exon 3
lower sequence: LOC_Os12g05680.1 (Oryza sativa), 3'ss of exon 3
-----tacttcccttgtgatcccaatgcatcctttcagtttcacctctggaacacggatacatgtgttgatctcctctctcctcccctatgatatctccttgcagCCTTTCCCACTGCTGCTGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTCTCG------
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cccagtgcagtgcttcagctggtagtagctttctgatgttgcagttgcaggat-tggatgcatttcttgatctcctc----ctcccctatgatatcttcttgcagCCTTCTCCACTGCTGCTG---CTGCAGCTACAGCA---ACAGCAACAGCTAGGCCTCCTGCTACACTGGACATCTTCCCATCCTGGCCTATGAGGAGGAGCTCTCT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.aacacggatacatgtgttgatctcctctctcctcccctatgatatctccttgcagCCTTTCCCACTGCTGCTGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTCTCG
tgttgat putative branch site (score: 4)
tctcctctctcctccc CT-rich tract
tatgatat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
tacttcccttgtgatcccaatgcatcctttcagtttcacctctggaacacggatacatgtgttgatctcctctctcctcccctatgatatctccttgcagCCTTTCCCACTGCTGCTGGTGCTACAGCTGCAACGGCTACGGCTACGGCTAGGCCACCTCCTACACTGGACATCTTCCCAGCTTGGCCTATGAGGTCTCG
- - - ccttgtg
- - - - - - - - - - tgcatcc
- - - - - - - - - - - - - - - - - - - - - - - - - - atacatg